Structural zeros

MAGs in different between location and shared between location

Total number only present in Ittoqqortoormii and absent in Daneborg

[1] 88

Mags only present in Ittoqqortoormii with species-level annotation

             genome            phylum                  class
1   EHA01900_bin.41 p__Actinomycetota      c__Coriobacteriia
2    EHA01902_bin.3 p__Pseudomonadota c__Gammaproteobacteria
3    EHA01902_bin.4 p__Pseudomonadota c__Gammaproteobacteria
4   EHA01903_bin.28 p__Pseudomonadota c__Gammaproteobacteria
5    EHA01904_bin.9      p__Bacillota             c__Bacilli
6    EHA01905_bin.8    p__Bacillota_A          c__Clostridia
7    EHA01907_bin.1   p__Bacteroidota         c__Bacteroidia
8   EHA01908_bin.14   p__Bacteroidota         c__Bacteroidia
9   EHA01908_bin.17    p__Bacillota_A          c__Clostridia
10  EHA01908_bin.24   p__Bacteroidota         c__Bacteroidia
11  EHA01908_bin.27    p__Bacillota_A          c__Clostridia
12   EHA01911_bin.1    p__Bacillota_A          c__Clostridia
13  EHA01913_bin.17 p__Actinomycetota      c__Coriobacteriia
14  EHA01914_bin.12    p__Bacillota_A          c__Clostridia
15  EHA01914_bin.20   p__Bacteroidota         c__Bacteroidia
16  EHA01916_bin.21 p__Actinomycetota      c__Coriobacteriia
17  EHA01916_bin.24      p__Bacillota             c__Bacilli
18  EHA01916_bin.26    p__Bacillota_A          c__Clostridia
19  EHA01918_bin.26 p__Actinomycetota       c__Actinomycetia
20   EHA01918_bin.3    p__Bacillota_A          c__Clostridia
21  EHA01919_bin.18 p__Fusobacteriota       c__Fusobacteriia
22   EHA01921_bin.9      p__Bacillota             c__Bacilli
23  EHA01922_bin.23    p__Bacillota_A          c__Clostridia
24   EHA01922_bin.4   p__Bacteroidota         c__Bacteroidia
25  EHA01924_bin.15    p__Bacillota_A          c__Clostridia
26  EHA01924_bin.22      p__Bacillota             c__Bacilli
27   EHA01926_bin.3 p__Actinomycetota      c__Coriobacteriia
28   EHA01928_bin.3 p__Actinomycetota      c__Coriobacteriia
29   EHA01928_bin.8      p__Bacillota             c__Bacilli
30  EHA01958_bin.10    p__Bacillota_A          c__Clostridia
31 EHA01958_bin.137 p__Actinomycetota       c__Actinomycetia
32 EHA01958_bin.145    p__Bacillota_A          c__Clostridia
33  EHA01958_bin.15    p__Bacillota_A          c__Clostridia
34 EHA01958_bin.178    p__Bacillota_A          c__Clostridia
35 EHA01958_bin.190   p__Bacteroidota         c__Bacteroidia
36 EHA01958_bin.191   p__Bacteroidota         c__Bacteroidia
37 EHA01958_bin.197    p__Bacillota_A          c__Clostridia
38 EHA01958_bin.208    p__Bacillota_A          c__Clostridia
39 EHA01958_bin.209      p__Bacillota             c__Bacilli
40 EHA01958_bin.228    p__Bacillota_A          c__Clostridia
41 EHA01958_bin.232    p__Bacillota_A          c__Clostridia
42  EHA01958_bin.29    p__Bacillota_A          c__Clostridia
43  EHA01958_bin.40   p__Bacteroidota         c__Bacteroidia
44  EHA01958_bin.43      p__Bacillota             c__Bacilli
45  EHA01958_bin.97      p__Bacillota             c__Bacilli
                     order                   family                  genus
1      o__Coriobacteriales     f__Coriobacteriaceae         g__Collinsella
2    o__Enterobacterales_A   f__Succinivibrionaceae  g__Anaerobiospirillum
3       o__Burkholderiales    f__Burkholderiaceae_A      g__Parasutterella
4    o__Enterobacterales_A   f__Succinivibrionaceae  g__Anaerobiospirillum
5       o__Lactobacillales       f__Enterococcaceae      g__Enterococcus_B
6       o__Oscillospirales       f__Ruminococcaceae        g__Avimicrobium
7         o__Bacteroidales        f__Bacteroidaceae         g__Phocaeicola
8         o__Bacteroidales        f__Tannerellaceae     g__Parabacteroides
9        o__Lachnospirales       f__Lachnospiraceae         g__Ventrimonas
10        o__Bacteroidales        f__Muribaculaceae            g__Limisoma
11        o__Clostridiales        f__Clostridiaceae       g__Clostridium_H
12 o__Peptostreptococcales f__Peptostreptococcaceae  g__Peptostreptococcus
13     o__Coriobacteriales     f__Coriobacteriaceae         g__Collinsella
14      o__Oscillospirales       f__Ruminococcaceae        g__Avimicrobium
15        o__Bacteroidales        f__Bacteroidaceae         g__Bacteroides
16     o__Coriobacteriales     f__Coriobacteriaceae         g__Collinsella
17      o__Lactobacillales      f__Lactobacillaceae       g__Lactobacillus
18      o__Oscillospirales       f__Ruminococcaceae        g__Avimicrobium
19      o__Actinomycetales    f__Bifidobacteriaceae     g__Bifidobacterium
20       o__Lachnospirales       f__Lachnospiraceae           g__Blautia_A
21      o__Fusobacteriales      f__Fusobacteriaceae     g__Cetobacterium_A
22      o__Lactobacillales      f__Lactobacillaceae g__Limosilactobacillus
23        o__Clostridiales        f__Clostridiaceae       g__Clostridium_H
24        o__Bacteroidales        f__Muribaculaceae            g__Limisoma
25        o__Clostridiales        f__Clostridiaceae         g__Clostridium
26      o__Lactobacillales      f__Catellicoccaceae       g__Catellicoccus
27     o__Coriobacteriales     f__Coriobacteriaceae         g__Collinsella
28     o__Coriobacteriales     f__Coriobacteriaceae         g__Collinsella
29      o__Lactobacillales      f__Streptococcaceae         g__Lactococcus
30        o__Clostridiales        f__Clostridiaceae         g__Clostridium
31      o__Actinomycetales    f__Bifidobacteriaceae     g__Bifidobacterium
32        o__Clostridiales        f__Clostridiaceae         g__Clostridium
33        o__Clostridiales        f__Clostridiaceae      g__Clostridium_AH
34      o__Oscillospirales       f__Ruminococcaceae        g__Avimicrobium
35        o__Bacteroidales        f__Tannerellaceae     g__Parabacteroides
36        o__Bacteroidales        f__Bacteroidaceae         g__Bacteroides
37        o__Clostridiales        f__Clostridiaceae         g__Clostridium
38        o__Clostridiales        f__Clostridiaceae       g__Clostridium_H
39      o__Lactobacillales       f__Enterococcaceae        g__Enterococcus
40 o__Peptostreptococcales f__Peptostreptococcaceae     g__Paraclostridium
41       o__Lachnospirales       f__Anaerotignaceae        g__Anaerotignum
42      o__Oscillospirales      f__Oscillospiraceae             g__Evtepia
43        o__Bacteroidales        f__Bacteroidaceae         g__Bacteroides
44      o__Lactobacillales       f__Enterococcaceae      g__Enterococcus_B
45      o__Lactobacillales      f__Lactobacillaceae       g__Lactobacillus
                                    species
1                s__Collinsella sp900551665
2  s__Anaerobiospirillum succiniciproducens
3          s__Parasutterella gallistercoris
4  s__Anaerobiospirillum succiniciproducens
5                   s__Enterococcus_B hirae
6               s__Avimicrobium sp934845495
7                s__Phocaeicola sp020026175
8                 s__Parabacteroides merdae
9                s__Ventrimonas sp900538475
10                  s__Limisoma sp900556245
11                   s__Clostridium_H novyi
12        s__Peptostreptococcus russellii_A
13              s__Collinsella intestinalis
14              s__Avimicrobium sp934845495
15                 s__Bacteroides stercoris
16              s__Collinsella intestinalis
17               s__Lactobacillus johnsonii
18              s__Avimicrobium sp934845495
19          s__Bifidobacterium adolescentis
20                s__Blautia_A massiliensis
21           s__Cetobacterium_A sp934085975
22           s__Limosilactobacillus reuteri
23                   s__Clostridium_H novyi
24                  s__Limisoma sp900541935
25                 s__Clostridium neonatale
26           s__Catellicoccus marimammalium
27               s__Collinsella sp900551665
28              s__Collinsella intestinalis
29                    s__Lactococcus lactis
30                 s__Clostridium saudiense
31                s__Bifidobacterium longum
32                   s__Clostridium celatum
33                 s__Clostridium_AH fallax
34              s__Avimicrobium sp934845495
35            s__Parabacteroides distasonis
36                 s__Bacteroides uniformis
37               s__Clostridium moniliforme
38                   s__Clostridium_H novyi
39                 s__Enterococcus faecalis
40             s__Paraclostridium sordellii
41              s__Anaerotignum sp001304995
42                   s__Evtepia sp934597725
43                    s__Bacteroides ovatus
44                s__Enterococcus_B faecium
45             s__Lactobacillus acidophilus

Number of MAGs present only in Ittoqqortoormii without species-level annotation

             genome              phylum                  class
1    EHA01905_bin.9   p__Pseudomonadota c__Gammaproteobacteria
2   EHA01906_bin.24   p__Actinomycetota      c__Coriobacteriia
3    EHA01907_bin.8     p__Bacteroidota         c__Bacteroidia
4   EHA01908_bin.19      p__Bacillota_A          c__Clostridia
5   EHA01908_bin.42   p__Actinomycetota      c__Coriobacteriia
6   EHA01909_bin.18   p__Fusobacteriota       c__Fusobacteriia
7   EHA01911_bin.14   p__Actinomycetota      c__Coriobacteriia
8    EHA01917_bin.3      p__Bacillota_A          c__Clostridia
9   EHA01918_bin.20 p__Campylobacterota     c__Campylobacteria
10   EHA01919_bin.3   p__Actinomycetota      c__Coriobacteriia
11  EHA01921_bin.25   p__Actinomycetota      c__Coriobacteriia
12  EHA01921_bin.29      p__Bacillota_A          c__Clostridia
13  EHA01922_bin.35     p__Bacteroidota         c__Bacteroidia
14  EHA01924_bin.29      p__Bacillota_A          c__Clostridia
15  EHA01925_bin.24   p__Actinomycetota      c__Coriobacteriia
16  EHA01926_bin.17      p__Bacillota_C       c__Negativicutes
17  EHA01927_bin.26      p__Bacillota_A          c__Clostridia
18  EHA01928_bin.26      p__Bacillota_A          c__Clostridia
19 EHA01958_bin.113        p__Bacillota             c__Bacilli
20 EHA01958_bin.114   p__Pseudomonadota c__Alphaproteobacteria
21 EHA01958_bin.162      p__Bacillota_A          c__Clostridia
22 EHA01958_bin.166      p__Bacillota_A          c__Clostridia
23 EHA01958_bin.175   p__Actinomycetota      c__Coriobacteriia
24 EHA01958_bin.199      p__Bacillota_A          c__Clostridia
25 EHA01958_bin.200      p__Bacillota_A          c__Clostridia
26 EHA01958_bin.206      p__Bacillota_A          c__Clostridia
27 EHA01958_bin.207      p__Bacillota_A          c__Clostridia
28 EHA01958_bin.210      p__Bacillota_A          c__Clostridia
29 EHA01958_bin.212   p__Actinomycetota      c__Coriobacteriia
30 EHA01958_bin.218   p__Actinomycetota      c__Coriobacteriia
31 EHA01958_bin.224      p__Bacillota_A          c__Clostridia
32  EHA01958_bin.25        p__Bacillota             c__Bacilli
33  EHA01958_bin.36      p__Bacillota_A          c__Clostridia
34  EHA01958_bin.46      p__Bacillota_A          c__Clostridia
35  EHA01958_bin.56      p__Bacillota_A          c__Clostridia
36  EHA01958_bin.61      p__Bacillota_A          c__Clostridia
37  EHA01958_bin.64      p__Bacillota_B         c__Peptococcia
38  EHA01958_bin.71      p__Bacillota_A          c__Clostridia
39  EHA01958_bin.78   p__Fusobacteriota       c__Fusobacteriia
40   EHA01958_bin.7        p__Bacillota             c__Bacilli
41  EHA01958_bin.94        p__Bacillota             c__Bacilli
42  EHA01958_bin.98   p__Pseudomonadota c__Gammaproteobacteria
43  EHA01958_bin.99      p__Bacillota_A          c__Clostridia
                     order                   family                 genus
1       o__Burkholderiales    f__Burkholderiaceae_C    g__Paenalcaligenes
2      o__Coriobacteriales     f__Coriobacteriaceae        g__Collinsella
3         o__Bacteroidales        f__Bacteroidaceae        g__Phocaeicola
4  o__Peptostreptococcales      f__Anaerovoracaceae        g__Gallibacter
5      o__Coriobacteriales     f__Coriobacteriaceae        g__Collinsella
6       o__Fusobacteriales      f__Fusobacteriaceae    g__Fusobacterium_A
7      o__Coriobacteriales     f__Coriobacteriaceae        g__Collinsella
8       o__Oscillospirales      f__Oscillospiraceae          g__Faecousia
9     o__Campylobacterales     f__Helicobacteraceae     g__Helicobacter_G
10     o__Coriobacteriales     f__Coriobacteriaceae        g__Collinsella
11     o__Coriobacteriales     f__Coriobacteriaceae        g__Collinsella
12 o__Peptostreptococcales f__Peptostreptococcaceae         g__Romboutsia
13        o__Bacteroidales        f__Bacteroidaceae        g__Phocaeicola
14       o__Lachnospirales       f__Lachnospiraceae            g__Blautia
15     o__Coriobacteriales     f__Coriobacteriaceae        g__Collinsella
16      o__Selenomonadales      f__Selenomonadaceae          g__Megamonas
17        o__Clostridiales        f__Clostridiaceae      g__Clostridium_J
18        o__Clostridiales        f__Clostridiaceae        g__Clostridium
19   o__Erysipelotrichales   f__Erysipelotrichaceae       g__Holdemanella
20          o__Rhizobiales      f__Beijerinckiaceae       g__Rhodoblastus
21       o__Tissierellales      f__Peptoniphilaceae      g__Anaerosphaera
22       o__Lachnospirales       f__Lachnospiraceae            g__Blautia
23     o__Coriobacteriales       f__Eggerthellaceae          g__Slackia_A
24      o__Oscillospirales              f__JAAYXM01           g__RGIG7332
25      o__Oscillospirales       f__Ruminococcaceae       g__Merdivicinus
26        o__Clostridiales        f__Clostridiaceae          g__Hathewaya
27        o__Clostridiales        f__Clostridiaceae      g__Clostridium_G
28       o__Lachnospirales               f__CAG-274                   g__
29     o__Coriobacteriales     f__Coriobacteriaceae        g__Collinsella
30     o__Coriobacteriales     f__Coriobacteriaceae        g__Collinsella
31        o__Clostridiales        f__Clostridiaceae        g__Clostridium
32      o__Haloplasmatales     f__Turicibacteraceae       g__Turicibacter
33               o__TANB77                      f__                   g__
34      o__Oscillospirales       f__Ruminococcaceae           g__RGIG3102
35        o__Clostridiales        f__Clostridiaceae      g__Clostridium_J
36      o__Oscillospirales       f__Ruminococcaceae             g__UBA866
37        o__Peptococcales        f__Peptococcaceae           g__UMGS1590
38      o__Oscillospirales    f__Acutalibacteraceae       g__Scybalenecus
39      o__Fusobacteriales      f__Fusobacteriaceae    g__Fusobacterium_A
40      o__Mycoplasmatales               f__UBA3375            g__UBA3375
41    o__Acholeplasmatales    f__Anaeroplasmataceae           g__CALUXS01
42   o__Enterobacterales_A   f__Succinivibrionaceae g__Anaerobiospirillum
43      o__Oscillospirales      f__Oscillospiraceae   g__Pseudoscilispira
[1] 48.86364

Total number only present in Daneborg and absent in Ittoqqortoormii

[1] 37

Mags only present in Daneborg with species-level annotation

            genome              phylum                  class
1  EHA01875_bin.10   p__Actinomycetota      c__Coriobacteriia
2  EHA01875_bin.16 p__Desulfobacterota    c__Desulfovibrionia
3  EHA01878_bin.28   p__Actinomycetota      c__Coriobacteriia
4   EHA01879_bin.8   p__Actinomycetota      c__Coriobacteriia
5   EHA01879_bin.9        p__Bacillota             c__Bacilli
6  EHA01882_bin.11   p__Actinomycetota      c__Coriobacteriia
7  EHA01887_bin.10   p__Actinomycetota      c__Coriobacteriia
8   EHA01887_bin.8   p__Pseudomonadota c__Gammaproteobacteria
9  EHA01888_bin.10   p__Actinomycetota      c__Coriobacteriia
10 EHA01889_bin.12   p__Actinomycetota      c__Coriobacteriia
11 EHA01890_bin.19   p__Pseudomonadota c__Gammaproteobacteria
12  EHA01893_bin.9        p__Bacillota             c__Bacilli
13  EHA01894_bin.8   p__Actinomycetota      c__Coriobacteriia
14  EHA01897_bin.2   p__Actinomycetota      c__Coriobacteriia
15  EHA01929_bin.1      p__Bacillota_C       c__Negativicutes
16 EHA01929_bin.65      p__Bacillota_A          c__Clostridia
                   order                 family                 genus
1    o__Coriobacteriales   f__Coriobacteriaceae        g__Collinsella
2  o__Desulfovibrionales f__Desulfovibrionaceae          g__Mailhella
3    o__Coriobacteriales   f__Coriobacteriaceae        g__Collinsella
4    o__Coriobacteriales   f__Coriobacteriaceae        g__Collinsella
5  o__Erysipelotrichales f__Erysipelotrichaceae        g__Allobaculum
6    o__Coriobacteriales   f__Coriobacteriaceae        g__Collinsella
7    o__Coriobacteriales   f__Coriobacteriaceae        g__Collinsella
8  o__Enterobacterales_A f__Succinivibrionaceae g__Anaerobiospirillum
9    o__Coriobacteriales   f__Coriobacteriaceae        g__Collinsella
10   o__Coriobacteriales   f__Coriobacteriaceae        g__Collinsella
11 o__Enterobacterales_A f__Succinivibrionaceae g__Anaerobiospirillum
12 o__Erysipelotrichales f__Erysipelotrichaceae        g__Allobaculum
13   o__Coriobacteriales   f__Coriobacteriaceae        g__Collinsella
14   o__Coriobacteriales   f__Coriobacteriaceae        g__Collinsella
15    o__Selenomonadales    f__Selenomonadaceae          g__Megamonas
16    o__Oscillospirales   f__Butyricicoccaceae     g__Butyricicoccus
                             species
1        s__Collinsella intestinalis
2           s__Mailhella sp020024815
3        s__Collinsella intestinalis
4        s__Collinsella intestinalis
5       s__Allobaculum stercoricanis
6        s__Collinsella intestinalis
7        s__Collinsella intestinalis
8  s__Anaerobiospirillum sp023051105
9        s__Collinsella intestinalis
10       s__Collinsella intestinalis
11 s__Anaerobiospirillum sp023051105
12      s__Allobaculum stercoricanis
13       s__Collinsella intestinalis
14       s__Collinsella intestinalis
15           s__Megamonas funiformis
16     s__Butyricicoccus sp018383195

Number of MAGs present only in Daneborg without species-level annotation

             genome              phylum                  class
1   EHA01872_bin.15     p__Bacteroidota         c__Bacteroidia
2   EHA01873_bin.15   p__Fusobacteriota       c__Fusobacteriia
3    EHA01878_bin.6 p__Desulfobacterota    c__Desulfovibrionia
4   EHA01887_bin.23   p__Fusobacteriota       c__Fusobacteriia
5    EHA01887_bin.4     p__Bacteroidota         c__Bacteroidia
6    EHA01890_bin.7        p__Bacillota             c__Bacilli
7    EHA01892_bin.5   p__Fusobacteriota       c__Fusobacteriia
8    EHA01894_bin.3      p__Bacillota_A          c__Clostridia
9    EHA01895_bin.6 p__Desulfobacterota    c__Desulfovibrionia
10  EHA01896_bin.26        p__Bacillota             c__Bacilli
11  EHA01896_bin.35   p__Fusobacteriota       c__Fusobacteriia
12  EHA01896_bin.36   p__Fusobacteriota       c__Fusobacteriia
13  EHA01897_bin.11   p__Pseudomonadota c__Gammaproteobacteria
14  EHA01897_bin.23   p__Fusobacteriota       c__Fusobacteriia
15 EHA01929_bin.112      p__Bacillota_A          c__Clostridia
16 EHA01929_bin.130   p__Fusobacteriota       c__Fusobacteriia
17 EHA01929_bin.143      p__Bacillota_A          c__Clostridia
18 EHA01929_bin.152        p__Bacillota             c__Bacilli
19  EHA01929_bin.32     p__Bacteroidota         c__Bacteroidia
20  EHA01929_bin.42    p__Spirochaetota        c__Brachyspirae
21  EHA01929_bin.62        p__Bacillota             c__Bacilli
                   order                 family                   genus
1       o__Bacteroidales              f__UBA932    g__Cryptobacteroides
2     o__Fusobacteriales    f__Fusobacteriaceae      g__Fusobacterium_A
3  o__Desulfovibrionales f__Desulfovibrionaceae            g__Mailhella
4     o__Fusobacteriales    f__Fusobacteriaceae                     g__
5       o__Bacteroidales      f__Bacteroidaceae       g__Alloprevotella
6     o__Haloplasmatales   f__Turicibacteraceae         g__Turicibacter
7     o__Fusobacteriales    f__Fusobacteriaceae      g__Fusobacterium_A
8     o__Oscillospirales     f__Ruminococcaceae     g__Faecalibacterium
9  o__Desulfovibrionales f__Desulfovibrionaceae            g__Mailhella
10    o__Haloplasmatales   f__Turicibacteraceae         g__Turicibacter
11    o__Fusobacteriales    f__Fusobacteriaceae      g__Fusobacterium_A
12    o__Fusobacteriales    f__Fusobacteriaceae      g__Fusobacterium_A
13 o__Enterobacterales_A f__Succinivibrionaceae g__Anaerobiospirillum_A
14    o__Fusobacteriales    f__Fusobacteriaceae      g__Fusobacterium_A
15    o__Oscillospirales    f__Oscillospiraceae     g__Pseudoscilispira
16    o__Fusobacteriales    f__Fusobacteriaceae      g__Fusobacterium_A
17     o__Lachnospirales     f__Lachnospiraceae         g__Faecalimonas
18 o__Erysipelotrichales f__Erysipelotrichaceae             g__CALVGN01
19      o__Bacteroidales      f__Bacteroidaceae        g__Phocaeicola_A
20     o__Brachyspirales     f__Brachyspiraceae          g__Brachyspira
21 o__Erysipelotrichales    f__Coprobacillaceae           g__Fimiplasma
[1] 56.75676

Phylum percentages

Daneborg

              Phylum        Mean          SD
   p__Fusobacteriota 39.86040326  9.50276145
     p__Bacteroidota 33.46096983 10.28066834
      p__Bacillota_A 11.71124356  5.59102631
   p__Pseudomonadota  9.77011822  3.32682054
        p__Bacillota  2.07262689  1.05420229
      p__Bacillota_C  1.65309681  0.73666970
   p__Actinomycetota  0.53422369  0.87082467
 p__Deferribacterota  0.43183843  0.45976979
 p__Campylobacterota  0.30217355  0.55610573
 p__Desulfobacterota  0.10163448  0.20496300
    p__Spirochaetota  0.05087026  0.08756671
      p__Bacillota_B  0.05080102  0.10006683

Ittoqqortoormii

              Phylum        Mean         SD
   p__Fusobacteriota 33.41194132 16.2729562
     p__Bacteroidota 27.23737663 11.2373166
      p__Bacillota_A 18.17611403  7.3137374
   p__Pseudomonadota  9.78459118  7.1311314
        p__Bacillota  4.55215410  5.3467364
      p__Bacillota_C  3.77340513  5.7240774
 p__Campylobacterota  1.48381289  2.1417871
   p__Actinomycetota  0.86137102  0.8632284
 p__Deferribacterota  0.35745975  0.6867294
      p__Bacillota_B  0.27794229  0.5742640
    p__Spirochaetota  0.08383167  0.2596527
 p__Desulfobacterota  0.00000000  0.0000000

Significantly different in taxonomy

Mann–Whitney U test (CLR data, without considering structural zeros)

Phylum

# A tibble: 3 × 3
  Phylum                  p_value   p_adjust
  <chr>                     <dbl>      <dbl>
1 p__Bacillota_A      0.0000575   0.000345  
2 p__Bacillota_C      0.000000522 0.00000627
3 p__Campylobacterota 0.0116      0.0464    

Family

# A tibble: 2 × 3
  Family                   p_value   p_adjust
  <chr>                      <dbl>      <dbl>
1 f__Eggerthellaceae  0.0000343    0.000823  
2 f__Selenomonadaceae 0.0000000404 0.00000194

Genera

# A tibble: 5 × 3
  Genus                  p_value   p_adjust
  <chr>                    <dbl>      <dbl>
1 g__Blautia_A      0.00000825   0.000573  
2 g__Megamonas      0.0000000404 0.00000562
3 g__Oliverpabstia  0.00134      0.0374    
4 g__Paraprevotella 0.000679     0.0236    
5 g__Slackia_A      0.0000343    0.00159   

Mann–Whitney U test (CLR data, considering structural zeros)

Phylum

# A tibble: 2 × 3
  Phylum             p_value p_adjust
  <chr>                <dbl>    <dbl>
1 p__Actinomycetota 0.000609  0.00670
2 p__Bacillota_A    0.00269   0.0148 

Family

# A tibble: 3 × 3
  Family                 p_value p_adjust
  <chr>                    <dbl>    <dbl>
1 f__Campylobacteraceae 0.00282   0.0355 
2 f__Coriobacteriaceae  0.000196  0.00705
3 f__Enterobacteriaceae 0.00296   0.0355 

Genera

# A tibble: 10 × 3
   Genus                                                        p_value p_adjust
   <chr>                                                          <dbl>    <dbl>
 1 d__Bacteria_p__Deferribacterota_c__Deferribacteres_o__Defer… 1.28e-3  2.28e-2
 2 g__Allobaculum                                               3.97e-9  4.25e-7
 3 g__Blautia_A                                                 3.75e-6  2.01e-4
 4 g__Campylobacter_D                                           2.82e-3  3.35e-2
 5 g__Collinsella                                               1.96e-4  4.19e-3
 6 g__Escherichia                                               2.11e-3  3.22e-2
 7 g__Lawsonibacter                                             3.25e-3  3.48e-2
 8 g__Mediterraneibacter                                        2.82e-3  3.35e-2
 9 g__Oliverpabstia                                             1.74e-4  4.19e-3
10 g__Paraprevotella                                            1.54e-4  4.19e-3

RDA

Permutation test for rda under reduced model
Permutation: free
Number of permutations: 999

Model: rda(formula = count_crl_t ~ region, data = design)
         Df Variance     F Pr(>F)    
Model     1   225.61 13.75  0.001 ***
Residual 56   918.86                 
---
Signif. codes:  0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1
Permutation test for rda under reduced model
Permutation: free
Number of permutations: 999

Model: rda(formula = hel1 ~ region, data = design)
         Df Variance      F Pr(>F)    
Model     1  0.08720 15.614  0.001 ***
Residual 56  0.31275                  
---
Signif. codes:  0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1
$r.squared
[1] 0.1971289

$adj.r.squared
[1] 0.1827919
$r.squared
[1] 0.2180283

$adj.r.squared
[1] 0.2040645
Permutation test for rda under reduced model
Permutation: free
Number of permutations: 999

Model: rda(formula = count_crl_t ~ region, data = design)
         Df Variance     F Pr(>F)    
Model     1   225.61 13.75  0.001 ***
Residual 56   918.86                 
---
Signif. codes:  0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1
Permutation test for rda under reduced model
Terms added sequentially (first to last)
Permutation: free
Number of permutations: 999

Model: rda(formula = count_crl_t ~ region, data = design)
         Df Variance     F Pr(>F)    
region    1   225.61 13.75  0.001 ***
Residual 56   918.86                 
---
Signif. codes:  0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1
Permutation test for rda under reduced model
Forward tests for axes
Permutation: free
Number of permutations: 999

Model: rda(formula = count_crl_t ~ region, data = design)
         Df Variance     F Pr(>F)    
RDA1      1   225.61 13.75  0.001 ***
Residual 56   918.86                 
---
Signif. codes:  0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1

Enrichment analysis between location

Edger

       regionIttoqqortoormii
Down                     124
NotSig                   178
Up                       253

Deseq (without considering structural zeros)

Deseq (considering structural zeros)

Ancombc2 (considering structural zeros)

ALDEx2 (considering structural zeros)

Significance based on posterior probabilities

Linda (without considering structural zeros)

Linda (considering structural zeros)